Dataset and Motifs High-scoring Sequences Motif Diagrams Annotated Sequences Debugging Information


MAST - Motif Alignment and Search Tool

MAST version 3.0 (Release date: 2001/03/01 11:41:04)

For further information on how to interpret these results or to get a copy of the MAST software please access http://meme.sdsc.edu.


REFERENCE

If you use this program in your research, please cite:

Timothy L. Bailey and Michael Gribskov, "Combining evidence using p-values: application to sequence homology searches", Bioinformatics, 14(48-54), 1998.


DATABASE AND MOTIFS

	DATABASE INO_up800.s (nucleotide)
	Last updated on Thu Mar  1 08:28:30 2001
	Database contains 7 sequences, 5600 residues

	Scores for positive and reverse complement strands are combined.

	MOTIFS meme.INO_up800.tcm.4.sunsparcsolaris.html (nucleotide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    15   TTCACATGCCGCCCC
	  2    21   GGCCACATCGCCACTGGCGGC
	  3    29   TTGTCTACGTTTCTGCCGTTCTTCAGGCC

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1     2
	----- ----- -----
	   2   0.27
	   3   0.23  0.15
	No overly similar pairs (correlation > 0.60) found.

	Random model letter frequencies (from non-redundant database):
	A 0.281 C 0.222 G 0.229 T 0.267 


SECTION I: HIGH-SCORING SEQUENCES

LinksSequence NameDescriptionE-valueLength
D A ?
INO1 sequence of the region up... 1.9e-16 800
D A ?
FAS1 sequence of the region up... 1.5e-11 800
D A ?
FAS2 sequence of the region up... 1.8e-10 800
D A ?
ACC1 sequence of the region up... 3.8e-08 800
D A ?
OPI3 sequence of the region up... 1.3e-05 800
D A ?
CHO2 sequence of the region up... 0.0024 800
D A ?
CHO1 sequence of the region up... 0.0087 800


SECTION II: MOTIF DIAGRAMS


LinksNameExpect   Motifs
S A ?
INO1 1.9e-16

+3
+3
-2
+3
-1
-1
-1
+3
+1
+2
S A ?
FAS1 1.5e-11

+2
+1
+3
S A ?
FAS2 1.8e-10

-3
-3
+3
+3
+1
+2
S A ?
ACC1 3.8e-08

-2
+1
+3
-3
-3
S A ?
OPI3 1.3e-05

+2
-2
+3
-2
+3
-1
+1
S A ?
CHO2 0.0024

+1
-1
+3
S A ?
CHO1 0.0087

+1
+1
+1
+3
SCALE
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
1 25 50 75 100 125 150 175 200 225 250 275 300 325 350 375 400 425 450 475 500 525 550 575 600 625 650 675 700 725 750 775 800


SECTION III: ANNOTATED SEQUENCES


INO1
S D ?

sequence of the region upstream from YJL153C
LENGTH = 800 COMBINED P-VALUE = 2.66e-17 E-VALUE = 1.9e-16
DIAGRAM: 92-[+3]-123-[+3]-92-[-2]-103-[+3]-28-[-1]-6-[-1]-34-[-1]-5-[+3]- 21-[+1]-4-[+2]-74

                      [+3]
                      3.1e-08
                      TTGTCTACGTTTCTGCCGTTCTTCAGGCC
                      ++++  + + +++++ ++ + ++++  ++
76   TCAACAAGGACGACTTGTTGTTAATGGTTTTGGCGGTTTTCATTCCCCCAGTGGCCGTCTGGAAGCGTAAGGGTA

                        [+3]
                        6.7e-08
                        TTGTCTACGTTTCTGCCGTTCTTCAGGCC
                        + ++  ++++++ + + +++ +++++++
226  ACGTTGTATATGAAACGAGTAGTGAACGTTCGTACGATCTTTCACGCAGACATGCGACTGCGCCCGCCGTAGACC

                                                                      [-2]
                                                                      1.5e-10
                                                                      GCCGCCAGTG
                                                                      ++++++++++
301  GTGACCTGGAAGCTCACCCTGCAGAGGAATCTCAAGCACAGCCTCCAGCATATGATGAAGACGATGAGGCCGGTG

     
     
     GCGATGTGGCC
     +++++++++++
376  CCGATGTGCCCTTGATGGACAACAAACAACAGCTCTCTTCCGGCCGTACTTAGTGATCGGAACGAGCTCTTTATC

                                            [+3]
                                            6.5e-13
                                            TTGTCTACGTTTCTGCCGTTCTTCAGGCC
                                            +++++++++++++++++++++++++++ +
451  ACCGTAGTTCTAAATAACACATAGAGTAAATTATTGCCTTTTTCTTCGTTCCTTTTGTTCTTCACGTCCTTTTTA

                          [-1]                 [-1]
                          5.3e-06              1.7e-06
                          GGGGCGGCATGTGAA      GGGGCGGCATGTGAA
                          +++++++ +++ + +      +++++++ +++++++
526  TGAAATACGTGCCGGTGTTCCGGGGTTGGATGCGGAATCGAAAGTGTTGAATGTGAAATATGCGGAGGCCAAGTA

                     [-1]                [+3]
                     6.6e-08             1.7e-08
                     GGGGCGGCATGTGAA     TTGTCTACGTTTCTGCCGTTCTTCAGGCC
                     +++++++++++++++     +++++++  ++ + ++++++++++   ++
601  TGCGCTTCGGCGGCTAAATGCGGCATGTGAAAAGTATTGTCTATTTTATCTTCATCCTTCTTTCCCAGAATATTG

                [+1]               [+2]
                2.1e-06            2.1e-07
                TTCACATGCCGCCCC    GGCCACATCGCCACTGGCGGC
                +++++++++++++      + ++++ ++ ++  +++++++
676  AACTTATTTAATTCACATGGAGCAGAGAAAGCGCACCTCTGCGTTGGCGGCAATGTTAATTTGAGACGTATATAA



FAS1
S D ?

sequence of the region upstream from YKL182W
LENGTH = 800 COMBINED P-VALUE = 2.19e-12 E-VALUE = 1.5e-11
DIAGRAM: 52-[+2]-21-[+1]-243-[+3]-419
                                                         [+2]
                                                         1.8e-07
                                                         GGCCACATCGCCACTGGCGGC
                                                         +  ++++ + ++ ++++++++
1    CCGGGTTATAGCAGCGTCTGCTCCGCATCACGATACACGAGGTGCAGGCACGGTTCACTACTCCCCTGGCCTCCA

                        [+1]
                        1.7e-08
                        TTCACATGCCGCCCC
                        ++++++++++++++
76   ACAAACGACGGCCAAAAACTTCACATGCCGCCCAGCCAAGCATAATTACGCAACAGCGATCTTTCCGTCGCACAA

                                                         [+3]
                                                         3.1e-10
                                                         TTGTCTACGTTTCTGCCGTTCTT
                                                         +++++ +  +++++++++++++
301  TTTTGGCATTTTTGGCATACTTTTTATCGATTGAACCATCTTCTCCAAACACTTTTCCTTTTTCCTTCTATTCTG

     
     
     CAGGCC
     ++++ +
376  CAGGACCAACTAAAACTGGGTATATATATCATTATCTATATATATAAACGGCTTTCAACAAAGTTATAGGGGAAA



FAS2
S D ?

sequence of the region upstream from YPL231W
LENGTH = 800 COMBINED P-VALUE = 2.53e-11 E-VALUE = 1.8e-10
DIAGRAM: 9-[-3]-138-[-3]-38-[+3]-112-[+3]-153-[+1]-131-[+2]-67
              [-3]
              5.8e-08
              GGCCTGAAGAACGGCAGAAACGTAGACAA
              +++  +++++++ +  +++++ +  ++++
1    TCCAGGCAAGGCACCAAGAGTTATTGAAACTAGAAAAATCCATGGCAGAACTTACTCAATTGTTTAATGACATGG

                               [-3]
                               1.8e-08
                               GGCCTGAAGAACGGCAGAAACGTAGACAA
                               + +++++++++++ ++++++ + +  +++
151  AACAGGGTGTCGGTCATACCGATAAAGCCGTCAAGAGTGCCAGAAAAGCAAGAAAGAACAAGATTAGATGTTGGT

                       [+3]
                       3.9e-08
                       TTGTCTACGTTTCTGCCGTTCTTCAGGCC
                       ++++  +++++ ++++++++ +++  + +
226  TGATTGTATTCGCCATCATTGTAGTCGTTGTTGTTGTCGTTGTTGTCCCAGCCGTTGTCAAAACGCGTTAATTCC

              [+3]
              8.9e-09
              TTGTCTACGTTTCTGCCGTTCTTCAGGCC
              +++ +++  ++++ ++++ +++ ++++++
376  TTTACTATATTTCCTAAATTTTCTCTGGTCTGCAGGCCAAAAACAACAACTTACTACTGAATCATGGACGTGTAT

                                              [+1]
                                              4.0e-07
                                              TTCACATGCCGCCCC
                                              +++++++++ +++++
526  GCTTAGCAAAATCCAACCATTTTTTTTTTATCTCCCGCGTTTTCACATGCTACCTCATTCGCCTCGTAACGTTAC

                                          [+2]
                                          3.7e-09
                                          GGCCACATCGCCACTGGCGGC
                                          + +++++++++++++++++++
676  TGCCTCATATATAACTTGTTAACTGAAGGTTACACAAGACCACATCACCACTGTCGTGCTTTTCTAATAACCGCT



ACC1
S D ?

sequence of the region upstream from YNR016C
LENGTH = 800 COMBINED P-VALUE = 5.50e-09 E-VALUE = 3.8e-08
DIAGRAM: 52-[-2]-9-[+1]-171-[+3]-51-[-3]-379-[-3]-15
                                                         [-2]
                                                         2.5e-07
                                                         GCCGCCAGTGGCGATGTGGCC
                                                         +++ ++++  +++ ++ ++++
1    TATCCAAAGGGGAATGCTTCATCTTGTTGAACAACGCCCAACAATTTCCACTGCCCACCGAATCGTTGCGCCCGT

            [+1]
            8.8e-07
            TTCACATGCCGCCCC
            ++++++++++++  +
76   TAAAATCTTCACATGGCCCGGCCGCGCGCGCGTTGTGCCAACAAGTCGCAGTCGAAATTCAACCGCTCATTGCCA

                                                [+3]
                                                2.0e-08
                                                TTGTCTACGTTTCTGCCGTTCTTCAGGCC
                                                ++++  +++ ++++ + +++ +++ +  +
226  TCGTATTCTGGCACAGTATAGCCTAGCACAATCACTGTCACAATTGTTATCGGTTCTACAATTGTTCTGCTCTCT

                                                     [-3]
                                                     1.1e-07
                                                     GGCCTGAAGAACGGCAGAAACGTAGAC
                                                       ++++++++  +++++ +++ +++ +
301  TCAATTTTCCTTTCCTTATTCTACTCTTTTTATCCCTTTCGTACAGTTTACCTGAAGATAAAAAACAACAAAGCC

     
     
     AA
     ++
376  AATTCCCTAATTTGCAATCGCCATTTGCATCTATATATATATATTTGTTGTGCCATTTTTTTATCCTCTGTGAGT

           [-3]
           1.0e-07
           GGCCTGAAGAACGGCAGAAACGTAGACAA
             ++ +++  +  +++++++  +++++++
751  TTTCCGTTCCCGAAACAGCGCAGAAAATTAGAAAAAATCAAGTTTCTACC



OPI3
S D ?

sequence of the region upstream from YJR073C
LENGTH = 800 COMBINED P-VALUE = 1.84e-06 E-VALUE = 1.3e-05
DIAGRAM: 291-[+2]-41-[-2]-24-[+3]-73-[-2]-15-[+3]-16-[-1]-40-[+1]-149

                                                                       [+2]
                                                                       9.1e-07
                                                                       GGCCACATC
                                                                       + +++ +++
226  ATAACGAGTCCGGTGAACTTGGTTCCTTGCTGAACAGTGTCTTCTTGTAAAGCTTCCCATTTGGTGGTCCCGTTC

                                                          [-2]
                                                          1.7e-06
     GCCACTGGCGGC                                         GCCGCCAGTGGCGATGTGGCC
     +++ +++++ ++                                         + +++++++ ++ +++ +  +
301  AACTCCGTCAGGTCTTCCACGTGGAACTGCCAAGCCTCCTTCAGATCGCTCTTGTCGACCGTCTCCAAGAGATCC

                            [+3]
                            5.3e-05
                            TTGTCTACGTTTCTGCCGTTCTTCAGGCC
                            + +++ +  +++   ++ +++++++   +
376  ACGATAATGCTTTCATTGGTGGCTAGTCCATCTTCGAATTCTTCTTCATCGCGACGGGAATTGACGTACACCTCC

                                                       [-2]
                                                       2.5e-08
                                                       GCCGCCAGTGGCGATGTGGCC
                                                       +++++++++ +++++++ +++
451  TGTGTATCGGGGACTTCTCTTAGAGTAGAAGCGTCTATAAACCCAGGTGGGACGACAGTAGTGATGGCGCCGCCG

                [+3]                                         [-1]
                5.7e-05                                      3.4e-06
                TTGTCTACGTTTCTGCCGTTCTTCAGGCC                GGGGCGGCATGTGAA
                ++   +    +++ + + +++++++ + +                +++ +++++++++ +
526  TATAATTCGACTTCCTTGTTGTTCATGCTTCCTTGATGACCAGGGTAGGTGTCAATGAGAGTGCATGTGGAAAGT

                                         [+1]
                                         2.0e-06
                                         TTCACATGCCGCCCC
                                         ++++ ++++++ +++
601  TGCACCGGTTGTGAAATATGAGAAGCCTTTTCAATCTTCATATGCAAACCCACACATGCATCGTTGGTTTCTGTC



CHO2
S D ?

sequence of the region upstream from YGR157W
LENGTH = 800 COMBINED P-VALUE = 3.48e-04 E-VALUE = 0.0024
DIAGRAM: 353-[+1]-109-[-1]-161-[+3]-118

                                                          [+1]
                                                          1.2e-06
                                                          TTCACATGCCGCCCC
                                                          +++ +++++++++++
301  ATATATATTTTTGCCTTGGTTTAAATTGGTCAAGACAGTCAATTGCCACACTTTTCTCATGCCGCATTCATTATT

                                [-1]
                                1.2e-05
                                GGGGCGGCATGTGAA
                                +++  +++++ ++++
451  GTGGATCTCCGACACATGTGAATTTATAAGTAGGCATATGAAAATACAGATTCTTTCCACTGTGTTCCCTTTTAT

                                                          [+3]
                                                          1.3e-06
                                                          TTGTCTACGTTTCTGCCGTTCT
                                                          ++++ ++++++  +++ +++
601  TTTTTTTTGCCTCTTTGATTAGTTTATCTTCTTTTCTTCATTTTATCCCCTAATTTTATACGTTAGTTCAACCTA

     
     
     TCAGGCC
      ++  ++
676  ACAATCCAGGATTTCATTAACAAGAAAGGTAAAAGTAACCTATCAAGGCTATTTTGAAAAAAAAAATTCCGCCCT



CHO1
S D ?

sequence of the region upstream from YER026C
LENGTH = 800 COMBINED P-VALUE = 1.25e-03 E-VALUE = 0.0087
DIAGRAM: 162-[+1]-433-[+1]-14-[+1]-83-[+3]-34

                 [+1]
                 6.4e-06
                 TTCACATGCCGCCCC
                 +++ +++ +++ +++
151  CGTCTGGCGCCCTTCCCATTCCGAACCATGTTATATTGAACCATCTGGCGACAAGCAGTATTAAGCATAATACAT

               [+1]                         [+1]
               4.5e-07                      1.5e-06
               TTCACATGCCGCCCC              TTCACATGCCGCCCC
               ++++++ ++++++++              +++++++++++++ +
601  ACTTTGAACGTTCACACGGCACCCTCACGCCTTTGAGCTTTCACATGGACCCATCTAAAGATGAAGATCCGTATT

                                                                   [+3]
                                                                   3.2e-05
                                                                   TTGTCTACGTTTC
                                                                   +++++ +  ++
676  TTATAGGAAACATTATAAATAAGGAAAGAGAGATACACCTATTTTTTTCATTTTGTGGGTGATTGTCATTTTTAG

     
     
     TGCCGTTCTTCAGGCC
     ++ + +  ++++  +
751  TTGTCTATTTGATTCAATCAAAAAACAAAAATAAAACTATATATTAAAAA


Debugging Information



CPU: nbcr2
Time 0.220000 secs.

mast meme.INO_up800.tcm.4.sunsparcsolaris.html -stdout


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E
Links to Entrez database at NCBI
S
Links to sequence scores (section I)
D
Links to motif diagrams (section II)
A
Links to sequence/motif annotated alignments (section III)
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